Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatgccatttcttttctagcttgtacaatatgctgaatctcaattttgagtcctgtataatttcctccgtgtgtttggtttcagGCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGCCTGAATGCAAATCCTCTTGTTAGCTTTTCTGGTGTGTTTGGAACTGGGG

Basic information

species Oryza sativa
transcript LOC_Os05g45950.1
intron # 4
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|58612208|gb|CK039920.1|CK039920
EST:     GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAG                         GCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATGGTTGGC
genomic: GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAGgtacatgcca ... ttggtttcagGCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
EST: gi|29687058|gb|CB683333.1|CB683333
EST:     GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAG                         GCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
genomic: GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAGgtacatgcca ... ttggtttcagGCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
EST: gi|33797474|gb|CF324597.1|CF324597
EST:     GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAG                         GCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
genomic: GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAGgtacatgcca ... ttggtttcagGCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
EST: gi|8956441|gb|BE230244.1|BE230244
EST:     GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAG                         GCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
genomic: GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAGgtacatgcca ... ttggtttcagGCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
EST: gi|8956076|gb|BE229880.1|BE229880
EST:     GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAG                         GCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
genomic: GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAGgtacatgcca ... ttggtttcagGCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
EST: gi|313081113|gb|HO213699.1|HO213699
EST:     GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAG                         GCTGAAGTCCAGT
genomic: GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAGgtacatgcca ... ttggtttcagGCTGAAGTCCAGT
EST: gi|8528059|gb|AU092874.1|AU092874
EST:     CTATCCATTCCTTTTCCCCTACCCAGAAGTCTGCCAAAG                         NCTGAAGTCCAGTNCTTGCATCCACATGCTGGCCTGAATGCTATTGTTGG
genomic: CTATCCATTCCTTTT-CCCTA-CCAGAAGTCTG-CAAAGgtacatgcca ... ttggtttcagGCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGG
EST: gi|58608189|gb|CK036222.1|CK036222
EST:     GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAG                         GCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
genomic: GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAGgtacatgcca ... ttggtttcagGCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
EST: gi|38474605|gb|CF958738.1|CF958738
EST:     GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAG                         GCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
genomic: GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAGgtacatgcca ... ttggtttcagGCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
EST: gi|3760364|gb|C97618.1|C97618
EST:     GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAG                         GCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
genomic: GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAGgtacatgcca ... ttggtttcagGCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
EST: gi|33810860|gb|CF331321.1|CF331321
EST:     GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAG                         GCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC
genomic: GCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAGgtacatgcca ... ttggtttcagGCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 71 (upstream exon), 74 (downstream exon)
Score: 92

TTGATAACTACATTCACAGTTCATGATCTGGGCACTCCAGGCCTGAAGGGAATTCTATCCATTCCTTTTCCCTACCAGAAGTCTGCAAAGgtacatgcca ... ttggtttcagGCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGCCTGAATGCAAATCCTCTTGTTAGCTTTTCTGGTGTGTTTGGAACTGGGG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgctgaatctcaattttgagtcctgtataatttcctccgtgtgtttggtttcagGCTGAAGTCCAGTACTTGCATCCACATGCTGGCCTGAATGCTATTGTTGGCCTGAATGCAAATCCTCTTGTTAGCTTTTCTGGTGTGTTTGGAACTGGGG
                        tgtataattt  TA-rich tract